Locus 5420

Sequence ID X_DroMel_CAF1
Location 14,130,140 – 14,130,235
Length 95
Max. P 0.836573
window8789

overview

Window 9

Location 14,130,140 – 14,130,235
Length 95
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 78.58
Mean single sequence MFE -26.63
Consensus MFE -15.05
Energy contribution -16.70
Covariance contribution 1.65
Combinations/Pair 1.16
Mean z-score -2.05
Structure conservation index 0.56
SVM decision value 0.73
SVM RNA-class probability 0.836573
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14130140 95 + 22224390
---GGAGACUUGGCUAAGUGGCACCCGAUUCCCGGAGACUUUAUAAAUAUGACUGUGCGUCAUAAAAAUGUAUGAGGCACAGUUGUCGAAGUGCAUGA
---(....)...........((((.((((....(....)...........((((((((.(((((......))))).))))))))))))..)))).... ( -29.40)
>DroPse_CAF1 52763 84 + 1
GAGACAGA-----CAGAGAGACACUCGCU---------CUCUAUAAAUAUGACUGCGAGUCAUAAAAAUGUAUGAGGCGCAGUUGUCAGAAGACAUGA
......((-----(((((((.(....)))---------))))........(((((((..(((((......)))))..))))))))))........... ( -26.40)
>DroSec_CAF1 39797 95 + 1
---GGAGACUUGGCUAAGUGGCACCCGAUUCCCGGAGACUUUAUAAAUAUGACUGUGCGUCAUAAAAAUGUAUGAGGCGCAGUUGUCGAAGUGCAUGA
---(....)...........((((.((((....(....)...........((((((((.(((((......))))).))))))))))))..)))).... ( -29.00)
>DroEre_CAF1 40890 95 + 1
---GGAGACUUGGCCAAGUGGCACCCGAUUCCCGGAUACUUUAUAAAUAUGACUGUGCGUCAUAAAAAUGUAUGAGGCUGAGUUGUCGAAGUGCAUGA
---(..((((..((((((((....(((.....))).)))))......((((((.....))))))...........)))..))))..)........... ( -25.00)
>DroYak_CAF1 39065 98 + 1
GCAGCAGACUUGGCUAAGUGGCACCCGAUUCCCGGCGACUUUAUAAAUAUGACUGUGCGUCAUAAAAAUGUAUGAGGCGGCGUUGUCGAAGUGCAUGA
..(((.......))).....((((.((((...((.((.(((((((..((((((.....))))))......))))))))).))..))))..)))).... ( -26.70)
>DroPer_CAF1 48040 82 + 1
GAGACAGA-----CAGAGAGACACUC--U---------CUCUAUAAAUAUGACUGGGAGUCAUAAAAAUGUAUGAGGCGCAGUUGUCAGAAGACAUGA
......((-----(((((((.....)--)---------))))........(((((.(..(((((......)))))..).))))))))........... ( -23.30)
>consensus
___GCAGACUUGGCUAAGUGGCACCCGAUUCCCGGAGACUUUAUAAAUAUGACUGUGCGUCAUAAAAAUGUAUGAGGCGCAGUUGUCGAAGUGCAUGA
...................(((..(((.....)))...............((((((((.(((((......))))).)))))))))))........... (-15.05 = -16.70 +   1.65)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:27 2006